SMTL ID : 6c1v.2 (1 other biounit)

MBD2 in complex with double-stranded DNA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

16 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.1: 4 residues within 4Å: Chain A: S.40, P.41, S.42, Y.55 Ligand excluded by PLIP UNX.2: 3 residues within 4Å: Chain A: R.25, S.30 Chain C: T.8 Ligand excluded by PLIP UNX.3: 2 residues within 4Å: Chain A: V.23, I.24 Ligand excluded by PLIP UNX.4: 1 residues within 4Å: Chain A: R.54 Ligand excluded by PLIP UNX.5: 6 residues within 4Å: Chain A: Y.37, K.45, R.47 Chain C: A.4, G.5 Ligands: UNX.7 Ligand excluded by PLIP UNX.6: 8 residues within 4Å: Chain A: R.25, S.27, G.28, L.29, S.30, A.31 Chain C: T.6, G.7 Ligand excluded by PLIP UNX.7: 4 residues within 4Å: Chain A: Y.37 Chain C: G.5, T.6 Ligands: UNX.5 Ligand excluded by PLIP UNX.8: 4 residues within 4Å: Chain B: S.40, P.41, S.42, Y.55 Ligand excluded by PLIP UNX.9: 3 residues within 4Å: Chain B: I.24, K.26 Ligands: UNX.11 Ligand excluded by PLIP UNX.10: 3 residues within 4Å: Chain B: R.25, K.26 Chain C: C.1 Ligand excluded by PLIP UNX.11: 3 residues within 4Å: Chain B: V.23, I.24 Ligands: UNX.9 Ligand excluded by PLIP UNX.12: 3 residues within 4Å: Chain C: A.4, G.5, T.6 Ligand excluded by PLIP UNX.13: 2 residues within 4Å: Chain C: G.3, A.4 Ligand excluded by PLIP UNX.14: 5 residues within 4Å: Chain A: R.47 Chain C: G.3, A.4, G.5 Chain D: C.8 Ligand excluded by PLIP UNX.15: 5 residues within 4Å: Chain C: G.5, T.6, G.7 Chain D: A.7, C.8 Ligand excluded by PLIP UNX.16: 3 residues within 4Å: Chain A: R.47 Chain D: C.6, A.7 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, K. et al., Structural basis for the ability of MBD domains to bind methyl-CG and TG sites in DNA. J. Biol. Chem. (2018)

Release Date

2018-02-14

Peptides

Methyl-CpG-binding domain protein 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

Methyl-CpG-binding domain protein 2

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